Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical research.Peer reviewe

Yes-Associated Protein (YAP) modulates oncogenic features and radiation sensitivity in endometrial cancer

10.1371/journal.pone.0100974PLoS ONE96e10097

Enhanced neutron pair transfer and collective excitations in the system \chem{^{206}Pb} + \chem{^{118}Sn} at barrier energies

At energies below the Coulomb barrier, neutron transfer and Coulomb excitation have been measured in a very heavy asymmetric nuclear system, in \chem{^{206}Pb} + \chem{^{118}Sn}. These are semi-magic nuclei showing super-fluid properties. Particle-$\gamma$ coincidence techniques using 5 Euroball Cluster detectors (EB), combined in a set-up with the Heidelberg-Darmstadt NaI Crystal Ball (CB), have been used. Position-sensitive detectors allowed the observation of scattering processes covering angles from 110 up to 150 degrees. The fragments are identified via the known $\gamma$-decays of the lowest excited states using the high resolution of EB. Using the unique feature of the set-up with the CB, transfer to well-defined final channels with known quantum numbers is selected using the high-efficiency multiplicity filter of the CB with no second $\gamma$-ray, i.e. without feeding. The data are analysed using the semi-classical approach and transfer probabilities are obtained. Coulomb excitation has been analysed using known transition probabilities. The enhancement is deduced for the two-neutron transfer populating the low-lying super-fluid 2$^{+}$ states in \chem{^{120}Sn} and \chem{^{116}Sn}, while the 2n transition remains in the ground state for the $^{20N}$Pb nuclei. Large enhancements up to $EF \simeq 10^3$ are observed. This is the first observation of neutron pair transfer enhancement for a heavy nuclear binary system with super-fluid properties with experimentally separated levels. The calculations with microscopic 2-neutron wave functions, with configuration mixing over six shell model configurations and using the coupled reaction channels approach, reproduce well the observed probabilities and the enhancement

Strong enhancement of two neutron transfer in the system 206Pb 118Sn

One and two neutron transfer has been measured in the heaviest asymmetric nuclear system with semi magic nuclei showing superfluid properties, in $^{206}$Pb+$^{118}$Sn collisions at an energy well below the Coulomb barrier with scattering orbits covering the largest angles. Particle-$\gamma$ coincidence techniques using 5 Euroball-Cluster detectors (EB) combined in a set-up with the Heidelberg-Darmstadt NaI-Crystal Ball (CB) have been used. Transfer channels are identified with EB via their known $\gamma$-decays of the lowest excited states. Using the unique feature of the set-up with the CB, transfer to well defined final states with known quantum numbers (without feeding) are selected using the high efficiency multiplicity filter of the CB (no second $\gamma$-ray). The data are analysed using the semiclassical approach and transfer probabilities are obtained. The enhancement for the two-neutron transfer populating the low lying superfluid 2$^{+}$ state in $^{120}$Sn (and $^{116}$Sn), while the Pb-branch is in the groundstate is deduced by comparison with the strongest single neutron transfer transition. Large enhancements (EF$\simeq$10$^3$) are observed. This is the first direct measurement of enhancement for a heavy nuclear binary system with experimentally separated levels suggesting a strong contribution from superfluid pair transfer

Strong enhancement of two-neutron transfer in the system 206^{206}Pb+118^{118}Sn

One and two neutron transfer has been measured in the heaviest asymmetric nuclear system with semi magic nuclei showing superfluid properties, in $^{206}$Pb+$^{118}$Sn collisions at an energy well below the Coulomb barrier with scattering orbits covering the largest angles. Particle-$\gamma$ coincidence techniques using 5 Euroball-Cluster detectors (EB) combined in a set-up with the Heidelberg-Darmstadt NaI-Crystal Ball (CB) have been used. Transfer channels are identified with EB via their known $\gamma$-decays of the lowest excited states. Using the unique feature of the set-up with the CB, transfer to well defined final states with known quantum numbers (without feeding) are selected using the high efficiency multiplicity filter of the CB (no second $\gamma$-ray). The data are analysed using the semiclassical approach and transfer probabilities are obtained. The enhancement for the two-neutron transfer populating the low lying superfluid 2$^{+}$ state in $^{120}$Sn (and $^{116}$Sn), while the Pb-branch is in the groundstate is deduced by comparison with the strongest single neutron transfer transition. Large enhancements (EF$\simeq$10$^3$) are observed. This is the first direct measurement of enhancement for a heavy nuclear binary system with experimentally separated levels suggesting a strong contribution from superfluid pair transfer